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An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles

Recent results comparing the temporal program of genome replication of yeast species belonging to the Lachancea clade support the scenario that the evolution of the replication timing program could be mainly driven by correlated acquisition and loss events of active replication origins. Using these...

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Autores principales: Droghetti, Rossana, Agier, Nicolas, Fischer, Gilles, Gherardi, Marco, Cosentino Lagomarsino, Marco
Formato: Online Artículo Texto
Lenguaje:English
Publicado: eLife Sciences Publications, Ltd 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8213407/
https://www.ncbi.nlm.nih.gov/pubmed/34013887
http://dx.doi.org/10.7554/eLife.63542
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author Droghetti, Rossana
Agier, Nicolas
Fischer, Gilles
Gherardi, Marco
Cosentino Lagomarsino, Marco
author_facet Droghetti, Rossana
Agier, Nicolas
Fischer, Gilles
Gherardi, Marco
Cosentino Lagomarsino, Marco
author_sort Droghetti, Rossana
collection PubMed
description Recent results comparing the temporal program of genome replication of yeast species belonging to the Lachancea clade support the scenario that the evolution of the replication timing program could be mainly driven by correlated acquisition and loss events of active replication origins. Using these results as a benchmark, we develop an evolutionary model defined as birth-death process for replication origins and use it to identify the evolutionary biases that shape the replication timing profiles. Comparing different evolutionary models with data, we find that replication origin birth and death events are mainly driven by two evolutionary pressures, the first imposes that events leading to higher double-stall probability of replication forks are penalized, while the second makes less efficient origins more prone to evolutionary loss. This analysis provides an empirically grounded predictive framework for quantitative evolutionary studies of the replication timing program.
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spelling pubmed-82134072021-06-21 An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles Droghetti, Rossana Agier, Nicolas Fischer, Gilles Gherardi, Marco Cosentino Lagomarsino, Marco eLife Computational and Systems Biology Recent results comparing the temporal program of genome replication of yeast species belonging to the Lachancea clade support the scenario that the evolution of the replication timing program could be mainly driven by correlated acquisition and loss events of active replication origins. Using these results as a benchmark, we develop an evolutionary model defined as birth-death process for replication origins and use it to identify the evolutionary biases that shape the replication timing profiles. Comparing different evolutionary models with data, we find that replication origin birth and death events are mainly driven by two evolutionary pressures, the first imposes that events leading to higher double-stall probability of replication forks are penalized, while the second makes less efficient origins more prone to evolutionary loss. This analysis provides an empirically grounded predictive framework for quantitative evolutionary studies of the replication timing program. eLife Sciences Publications, Ltd 2021-05-20 /pmc/articles/PMC8213407/ /pubmed/34013887 http://dx.doi.org/10.7554/eLife.63542 Text en © 2021, Droghetti et al https://creativecommons.org/licenses/by/4.0/This article is distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use and redistribution provided that the original author and source are credited.
spellingShingle Computational and Systems Biology
Droghetti, Rossana
Agier, Nicolas
Fischer, Gilles
Gherardi, Marco
Cosentino Lagomarsino, Marco
An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles
title An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles
title_full An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles
title_fullStr An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles
title_full_unstemmed An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles
title_short An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles
title_sort evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles
topic Computational and Systems Biology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8213407/
https://www.ncbi.nlm.nih.gov/pubmed/34013887
http://dx.doi.org/10.7554/eLife.63542
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